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Genomic characterization of prophage elements in Clostridium clostridioforme: an understudied component of the intestinal microbiome.
Humphrey, Suzanne; Marouli, Angeliki; Thümmler, Katja; Mullin, Margaret; Pritchard, Leighton; Wall, Daniel M.
Afiliación
  • Humphrey S; Strathclyde Institute of Pharmacy and Biomedical Sciences, University of Strathclyde, Glasgow, G4 0RW, UK.
  • Marouli A; School of Infection and Immunity, College of Medical and Veterinary Sciences, University of Glasgow, Glasgow, G12 8TA, UK.
  • Thümmler K; Present address: School of Dental Sciences, Framlington Place, Newcastle University, Newcastle upon Tyne, NE2 4BW, UK.
  • Mullin M; School of Infection and Immunity, College of Medical and Veterinary Sciences, University of Glasgow, Glasgow, G12 8TA, UK.
  • Pritchard L; CAF Electron Microscopy Unit (MVLS College Research Facilities), University of Glasgow, Glasgow, G12 8QQ, UK.
  • Wall DM; Strathclyde Institute of Pharmacy and Biomedical Sciences, University of Strathclyde, Glasgow, G4 0RW, UK.
Microbiology (Reading) ; 170(8)2024 Aug.
Article en En | MEDLINE | ID: mdl-39132742
ABSTRACT
Genome sequencing of Clostridium clostridioforme strain LM41 revealed the presence of an atypically high proportion of mobile genetic elements for this species, with a particularly high abundance of prophages. Bioinformatic analysis of prophage sequences sought to characterize these elements and identify prophage-linked genes contributing to enhanced fitness of the host bacteria in the dysbiotic gut. Using PHASTER, PhageScope and manual curation, this work has identified 15 prophages 4 predicted to be intact, 2 predicted to be defective and 9 which are unclassified. Quantitative PCR (qPCR) analysis revealed spontaneous release of four of the LM41 prophages (φ1, φ2, φ4 and φ10) into the culture supernatant, with virion-like particles visualized using transmission electron microscopy. The majority (12/14) of these particles had morphology akin to podoviruses, which is consistent with morphology predictions for φ1 and φ4. We observed diversity in the lysogeny mechanisms utilized by the prophages, with examples of the classical λ-like CI/Cro system, the ICEBs1 ImmR/ImmA-like system and the Mu-like C/Ner system. Classical morons, such as toxins or immune evasion factors, were not observed. We did, however, identify a variety of genes with roles in mediating restriction modification and genetic diversity, as well as some candidate genes with potential roles in host adaptation. Despite being the most abundant entities in the intestine, there is a dearth of information about phages associated with members of the microbiome. This work begins to shed light on the contribution of these elements to the lifestyle of C. clostridioforme LM41.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Clostridium / Profagos / Microbioma Gastrointestinal Idioma: En Revista: Microbiology (Reading) Asunto de la revista: MICROBIOLOGIA Año: 2024 Tipo del documento: Article Pais de publicación: Reino Unido
Texto completo
Añadir a Mi BVS
Imprimir
XML
PubMed Links
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Clostridium / Profagos / Microbioma Gastrointestinal Idioma: En Revista: Microbiology (Reading) Asunto de la revista: MICROBIOLOGIA Año: 2024 Tipo del documento: Article Pais de publicación: Reino Unido